The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.
Total Genus |
98
|
sequence length |
543
|
structure length |
445
|
Chain Sequence |
DITLLNPIVRKFQYGQHTVTLETGMMARQATAAVMVSMDDTAVFVTVVGQKKAKPGQDFFPLTVNYQERTYAAGRIPSEGETLIARLIDRPIRPLFPEFVNEVQVIATVVSVNPQVNPDIVAMIGASAALSLSGIPFNGPIGAARVGYINDQYVLNPTQDELKESKLDLVVAGTEAAVLMVESEAQLLSEDQMLGAVVFGHEQQQVVIQNINELVKEAGKPRWDWQPEPAIEKNVVRSRVLAGEPRIDGREKDMIRGLDVRTGVLPRTHGSALFTRGETQALVTATLGTERTDTFLFHYNFPPYEIGHGRLAKRGVLAVMPDMDKFPYTVRVVSEITESNGSSSMASVCGASLALMDAGVPIKAAVAGIAMGLVKEGDNYVVLSDILGDEDHLGDMDFKVAGSRDGISALQMDIKIEGITKEIMQVALNQAKGARLHILGVMEQA
|
The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Crystal structure of Escherichia coli PNPase: central channel residues are involved in processive RNA degradation.
pubmed doi rcsb |
| molecule tags |
Transferase
|
| source organism |
Escherichia coli
|
| molecule keywords |
Polynucleotide phosphorylase
|
| total genus |
98
|
| structure length |
445
|
| sequence length |
543
|
| ec nomenclature |
ec
2.7.7.8: Polyribonucleotide nucleotidyltransferase. |
| pdb deposition date | 2008-02-27 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF01138 | RNase_PH | 3' exoribonuclease family, domain 1 |
| A | PF03725 | RNase_PH_C | 3' exoribonuclease family, domain 2 |
| A | PF03726 | PNPase | Polyribonucleotide nucleotidyltransferase, RNA binding domain |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 2-Layer Sandwich | Ribosomal Protein S5; domain 2 | GHMP Kinase, N-terminal domain | ||
| Alpha Beta | 2-Layer Sandwich | Ribosomal Protein S5; domain 2 | GHMP Kinase, N-terminal domain |
#chains in the Genus database with same CATH superfamily 1R6M A; 5K36 C; 1UDQ A; 2BA0 G; 5C0X A; 2JE6 B; 3CDJ A; 2C38 B; 4BA1 A; 4IFD A; 2NN6 F; 1R6L A; 4BA2 B; 4OO1 E; 3GME A; 2PNZ B; 3GLL A; 5C0X C; 4IFD E; 1UDO A; 2WP8 A; 4IFD C; 5K36 E; 1UDN A; 2PO2 B; 3U1K A; 5JEA B; 2PO0 B; 2JEA B; 2NN6 B; 5JEA F; 2NN6 D; 5K36 F; 2JE6 A; 2C38 A; 5C0X E; 2BR2 B; 4BA2 A; 4OO1 B; 4AIM A; 2PNZ A; 2WNR B; 4OO1 F; 4AM3 A; 1OYS A; 2C39 B; 2PO1 B; 4IFD F; 2JEB B; 5JEA D; 5K36 B; 1E3P A; 1OYP A; 2C39 A; 5K36 D; 1UDS A; 3B4T A; 3L7Z B; 3M7N D; 2C37 B; 2PO2 A; 1OYR A; 5JEA A; 3CDI A; 2PO0 A; 2JEA A; 2NN6 A; 2BA1 G; 3HKM A; 2BA1 D; 5C0X B; 4OO1 D; 1E3H A; 5C0X D; 4BA1 B; 2BR2 A; 2NN6 E; 5JEA C; 3GCM A; 5C0X F; 4IFD B; 4OO1 A; 4IFD D; 2NN6 C; 2WNR A; 3H1C A; 4NBQ A; 2BA0 D; 3M85 G; 3M7N G; 3M85 D; 2PO1 A; 2JEB A; 2WP8 B; 4OO1 C; 5K36 A; 3L7Z A; 2C37 A; 3KRN A; 4AID A; 5JEA E; 3DD6 A; #chains in the Genus database with same CATH topology 1DAR A; 2UUC I; 4ED4 A; 5IWA E; 1N36 I; 1R6M A; 1ZXM A; 4DR3 E; 3B78 A; 1KIJ A; 4U3D A; 5LMU I; 2VQF I; 4BA2 B; 5GMD A; 4X66 E; 4Z7Y A; 4JI4 I; 4HAC A; 3J80 Q; 1Y4U A; 2PNM A; 1MG7 A; 1H7U A; 2WP8 A; 1N32 I; 4LF7 I; 1I94 E; 4LFA E; 3H4L A; 4B3T E; 4JI1 E; 5K36 E; 1IBM E; 1UDN A; 3OTO E; 1Z0B A; 3V2U C; 4LF5 I; 4DV3 I; 4KHP I; 3PYG A; 1EI1 A; 5L3J A; 4WUB A; 4LFB E; 4LCG A; 1RR9 A; 4YY3 I; 3WU5 A; 2UUB E; 1EA6 A; 2IOP A; 2UXC I; 3PS3 A; 4P7A A; 2V8P A; 5C0X E; 3Q1Q A; 3V5R A; 2UUA E; 3PS2 A; 4OO1 B; 1U2R A; 4AIM A; 5A2Q Q; 4JI5 E; 3PYD A; 4FWH A; 4DV1 E; 3WU6 A; 1XMQ I; 1ZM2 A; 4DR2 E; 4FW7 A; 1H72 C; 1RHY A; 4DV0 I; 2PO1 B; 4IFD F; 4B3S I; 1HK7 A; 1NHJ A; 3K17 A; 3L7Z B; 1FKA E; 4WUC A; 4AQY E; 4DR7 E; 4IZJ D; 2PO2 A; 3T1Y I; 2UXD E; 1VI7 A; 4NXM E; 2PO0 A; 4DUZ I; 2NN6 A; 2DEI A; 1J5E I; 1B62 A; 4DV6 I; 2J65 A; 4I3H A; 4YHH I; 5FLX C; 2BR2 A; 3GCM A; 2AJ4 A; 4DV7 I; 4IFD D; 2NN6 C; 1XNQ I; 1H7S A; 4MU0 A; 4DUY E; 4DR5 I; 5ELW A; 4JI8 I; 2BM1 A; 1Z59 A; 4DPY A; 3M85 G; 4LF8 I; 1MU5 A; 3HUL A; 2IES A; 4HAC B; 2X7I A; 2GO3 A; 1WUU A; 2WP8 B; 3ZZT A; 5K36 A; 4WUD A; 2C37 A; 3F0N A; 4B3R E; 3LTO A; 1IBK I; 4MYT A; 4JI3 E; 3K1J A; 1Z0T A; 3ZZU A; 4OKG A; 5K36 C; 4LF4 E; 3LPS A; 2BA0 G; 5C0X A; 1FJG E; 5IT9 C; 1IBL E; 4RPF A; 5EKW A; 5DRP A; 4MQY A; 2HKJ A; 4DV5 I; 4DR1 E; 4JI0 I; 2GO4 A; 2F4V E; 2Z5B A; 5C0X C; 4IFD E; 5LL6 R; 3Q6N A; 2ZM6 I; 2GQ0 A; 4X65 I; 4JI2 I; 2DEJ A; 4LFC E; 1HNZ I; 2UXB I; 2PO2 B; 4JG4 A; 3PYE A; 2UUC E; 4X64 E; 2PO0 B; 2NN6 B; 1K47 A; 2PNL A; 5JEA F; 4UTG A; 4FWG A; 1NHI A; 4IS9 A; 4MU1 A; 3QT5 A; 4DR6 I; 2HKE A; 4DV2 E; 1FWL A; 5GME A; 4DV4 I; 2BR2 B; 4X62 E; 2VQF E; 1PKP A; 4URL A; 1HNW E; 1USU A; 4LCH A; 1RRE A; 4U3B A; 4UT4 A; 1HNX I; 4FN5 A; 2HFS A; 1N32 E; 4JV5 I; 4LF7 E; 2C39 B; 3B8H A; 4LF6 E; 3UHM A; 4HY1 A; 2ZIT A; 5JEA D; 1A6F A; 3PS1 A; 5K36 B; 4QNK A; 1UDS A; 2CZ9 A; 4LF5 E; 2C37 B; 4DV3 E; 3CDI A; 2XEX A; 2JEA A; 1QZR A; 4YY3 E; 5DRO A; 4B3T I; 5BR8 I; 4JI1 I; 4GKJ E; 1XHK A; 2VES A; 3U1Y A; 1YHC A; 5C0X B; 1VIS A; 1HR0 E; 2Z5C A; 4LPF A; 3WU3 A; 4JYA E; 1NZ0 A; 2E5L I; 2F1D A; 4OX9 E; 3H1C A; 4NBQ A; 1UEK A; 2HK2 A; 2O3Z A; 2Z5B B; 3M7N G; 4DR4 E; 2UUA I; 4JI6 I; 1Z5C A; 2R42 A; 4JI5 I; 3Q6M A; 3T1Y E; 4DXL A; 4FW5 A; 4DUZ E; 4DR2 I; 3QT6 A; 4PRX A; 3P06 A; 5JEA E; 3QT7 A; 1USV A; 1Y4S A; 2HHH E; 4NXN I; 2J7K A; 4DV6 E; 1PIE A; 4YHH E; 2O1T A; 4GKK I; 2Z5E A; 3D4J A; 1FI4 A; 4ISA A; 3CDJ A; 4DV7 E; 2UXD I; 4DR5 E; 1FWK A; 2NN6 F; 2CVE A; 1R6L A; 4LF8 E; 4J3D A; 1XMO I; 3GLL A; 4MU3 A; 4JI7 E; 1N33 I; 3GON A; 3P76 A; 1UDO A; 4HXZ A; 2NPF A; 1N0V C; 2ZBK B; 2IOQ A; 4KQV A; 4DUY I; 3JAM C; 4K0K E; 2O1W A; 1Z0V A; 1IBK E; 2LJP A; 4USM A; 1S16 A; 4FW6 A; 2JEA B; 1Y60 A; 4LOM A; 2NN6 D; 4QNJ A; 2VQE I; 5K36 F; 4MDT A; 2V2Z A; 1Z0C A; 2Q2E B; 5FLX Q; 2JE6 A; 2C38 A; 4LCF A; 4B3R I; 1Z5A A; 2Z5C B; 1D6T A; 4DV5 E; 3T1H E; 1KKH A; 3K85 A; 4JI0 E; 2PNZ A; 4B3M I; 3J7A G; 4ZVI A; 2UU9 E; 4OO1 F; 5DNL A; 1XXE A; 4IZK A; 4LF9 I; 4AM3 A; 3B82 A; 1OYS A; 5LMN I; 1N34 I; 1HNZ E; 2UXB E; 1N36 E; 5K36 D; 3B4T A; 2F4V I; 2HFU A; 5JEA A; 4DU7 A; 5LMU E; 3J7A M; 4DR6 E; 4DPX A; 5EL9 A; 4LFC I; 3CWV A; 1B63 A; 4DPU A; 1XNR I; 3HKM A; 2BA1 D; 5IWA I; 4EMD A; 4OO1 D; 4DR3 I; 4DU8 A; 5IT9 Q; 5C0X D; 2NN6 E; 2O1U A; 5JEA C; 4JI4 E; 4X64 I; 3P3E A; 3P3C A; 2WNR A; 1HNX E; 3LNU A; 2BA0 D; 5DNX A; 2R3V A; 5A2Q C; 4DV2 I; 2A2C A; 4DPT A; 4JV5 E; 4XTJ A; 4FW3 A; 4X62 I; 4X66 I; 2JT2 A; 1HNW I; 3NZK A; 4KHP E; 2JEB A; 4DPW A; 3WU4 A; 2CG9 A; 4IZJ A; 1I94 I; 4LFA I; 2UXC E; 3KRN A; 4LF6 I; 4AID A; 1IBM I; 2GS8 A; 1PVG A; 5BR8 E; 3OTO I; 2OI2 A; 1UDQ A; 4LFB I; 2JE6 B; 1NHH A; 2CGE A; 2C38 B; 4BA1 A; 1Y5Y A; 2E5L E; 2UUB I; 1XMQ E; 4Z7C A; 4IFD A; 3ZZ0 A; 4DV0 E; 1ZM9 A; 4GKJ I; 4B3S E; 4OO1 E; 2V34 A; 3GME A; 2PNZ B; 2V2V A; 1HR0 I; 3PRY A; 1YH8 A; 1P42 A; 3J81 C; 4IZK B; 4JI6 E; 4JYA I; 4DV1 I; 2IER A; 1ZM3 A; 4IFD C; 4OX9 I; 4N3O A; 1J5E E; 2E1R A; 4DR4 I; 3M6A A; 3U1K A; 4NXN E; 1H73 A; 4FW9 A; 5JEA B; 4AQY I; 4DR7 I; 1ZXN A; 3QT8 A; 4GKK E; 4NXM I; 3ZKB A; 1XNQ E; 1S4E A; 4MYU A; 1Z0W A; 3PYF A; 4JI8 E; 2BM0 A; 3P3G A; 2EFG A; 2HHH I; 4USK A; 4BA2 A; 1XMO E; 3HJC A; 2WNR B; 1N33 E; 4FWD A; 2HK3 A; 1H74 A; 1BKN A; 1ELO A; 3ZM7 A; 1OJ4 A; 1N0U A; 2JEB B; 1ZM4 A; 3J81 Q; 1E3P A; 1OYP A; 5DRR A; 2C39 A; 4IZJ B; 3M7N D; 4JI7 I; 1KTV A; 1OYR A; 5FWK A; 4OZE A; 4R1F A; 2VQE E; 4PRV A; 1KVK A; 4JI3 I; 2BA1 G; 2O1V A; 4K0K I; 1Y6Z A; 1E3H A; 4LF4 I; 4BA1 B; 2X36 A; 5C0X F; 1FNM A; 2ZM6 E; 4B3M E; 1FJG I; 4IFD B; 1Z0E A; 4OO1 A; 4X65 E; 1IBL I; 4JI2 E; 3J80 C; 2WW4 A; 1Z0G A; 4LF9 E; 4DR1 I; 4HYM A; 2AE8 A; 3M85 D; 5LMN E; 1N34 E; 5DRQ A; 2V2Q A; 2PO1 A; 3T1H I; 4FW4 A; 4OO1 C; 4P52 A; 2UU9 I; 3JAM Q; 3L7Z A; 4PU9 A; 1Z5B A; 2BV3 A; 1MX0 A; 2A2D A; 4M1K A; 2VF3 A; 4DV4 E; 4GQU A; 3DD6 A; 3ZKD A; 1XNR E; 4MU4 A; #chains in the Genus database with same CATH homology 1R6M A; 5K36 C; 1UDQ A; 2BA0 G; 5C0X A; 2JE6 B; 3CDJ A; 2C38 B; 4BA1 A; 4IFD A; 2NN6 F; 1R6L A; 4BA2 B; 4OO1 E; 3GME A; 2PNZ B; 3GLL A; 5C0X C; 4IFD E; 1UDO A; 2WP8 A; 4IFD C; 5K36 E; 1UDN A; 2PO2 B; 3U1K A; 5JEA B; 2PO0 B; 2JEA B; 2NN6 B; 5JEA F; 2NN6 D; 5K36 F; 2JE6 A; 2C38 A; 5C0X E; 2BR2 B; 4BA2 A; 4OO1 B; 4AIM A; 2PNZ A; 2WNR B; 4OO1 F; 4AM3 A; 1OYS A; 2C39 B; 2PO1 B; 4IFD F; 2JEB B; 5JEA D; 5K36 B; 1E3P A; 1OYP A; 2C39 A; 5K36 D; 1UDS A; 3B4T A; 3L7Z B; 3M7N D; 2C37 B; 2PO2 A; 1OYR A; 5JEA A; 3CDI A; 2PO0 A; 2JEA A; 2NN6 A; 2BA1 G; 3HKM A; 2BA1 D; 5C0X B; 4OO1 D; 1E3H A; 5C0X D; 4BA1 B; 2BR2 A; 2NN6 E; 5JEA C; 3GCM A; 5C0X F; 4IFD B; 4OO1 A; 4IFD D; 2NN6 C; 2WNR A; 3H1C A; 4NBQ A; 2BA0 D; 3M85 G; 3M7N G; 3M85 D; 2PO1 A; 2JEB A; 2WP8 B; 4OO1 C; 5K36 A; 3L7Z A; 2C37 A; 3KRN A; 4AID A; 5JEA E; 3DD6 A;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
